mirror of
https://github.com/dptech-corp/Uni-Lab-OS.git
synced 2026-02-04 13:25:13 +00:00
Merge branch 'dev' into prcix9320
This commit is contained in:
zhangshixiang
@@ -1,337 +1,505 @@
|
||||
"""
|
||||
PRCXI transfer_liquid 集成测试。
|
||||
|
||||
这些用例会启动 UniLiquidHandler RViz 仿真 backend，需要同时满足：
|
||||
1. 安装 pylabrobot 依赖；
|
||||
2. 设置环境变量 UNILAB_SIM_TEST=1；
|
||||
3. 具备 ROS 运行环境（rviz_backend 会创建 ROS 节点）。
|
||||
"""
|
||||
import asyncio
|
||||
import os
|
||||
from dataclasses import dataclass
|
||||
from typing import List, Sequence
|
||||
from typing import Any, Iterable, List, Optional, Sequence, Tuple
|
||||
|
||||
import pytest
|
||||
|
||||
from unilabos.devices.liquid_handling.liquid_handler_abstract import LiquidHandlerAbstract
|
||||
from unilabos.devices.liquid_handling.prcxi.prcxi import PRCXI9300Deck, PRCXI9300Trash
|
||||
from unilabos.devices.liquid_handling.prcxi.prcxi_labware import (
|
||||
PRCXI_300ul_Tips,
|
||||
PRCXI_BioER_96_wellplate,
|
||||
)
|
||||
|
||||
pytestmark = pytest.mark.slow
|
||||
|
||||
try:
|
||||
from pylabrobot.resources import Coordinate, Deck, Plate, TipRack, Well
|
||||
except ImportError: # pragma: no cover - 测试环境缺少 pylabrobot 时直接跳过
|
||||
Coordinate = Deck = Plate = TipRack = Well = None # type: ignore[assignment]
|
||||
PYLABROBOT_AVAILABLE = False
|
||||
else:
|
||||
PYLABROBOT_AVAILABLE = True
|
||||
|
||||
SIM_ENV_VAR = "UNILAB_SIM_TEST"
|
||||
|
||||
|
||||
@dataclass
|
||||
class SimulationContext:
|
||||
handler: LiquidHandlerAbstract
|
||||
deck: Deck
|
||||
tip_rack: TipRack
|
||||
source_plate: Plate
|
||||
target_plate: Plate
|
||||
waste_plate: Plate
|
||||
channel_num: int
|
||||
@dataclass(frozen=True)
|
||||
class DummyContainer:
|
||||
name: str
|
||||
|
||||
def __repr__(self) -> str: # pragma: no cover
|
||||
return f"DummyContainer({self.name})"
|
||||
|
||||
|
||||
@dataclass(frozen=True)
|
||||
class DummyTipSpot:
|
||||
name: str
|
||||
|
||||
def __repr__(self) -> str: # pragma: no cover
|
||||
return f"DummyTipSpot({self.name})"
|
||||
|
||||
|
||||
def make_tip_iter(n: int = 256) -> Iterable[List[DummyTipSpot]]:
|
||||
"""Yield lists so code can safely call `tip.extend(next(self.current_tip))`."""
|
||||
for i in range(n):
|
||||
yield [DummyTipSpot(f"tip_{i}")]
|
||||
|
||||
|
||||
class FakeLiquidHandler(LiquidHandlerAbstract):
|
||||
"""不初始化真实 backend/deck；仅用来记录 transfer_liquid 内部调用序列。"""
|
||||
|
||||
def __init__(self, channel_num: int = 8):
|
||||
# 不调用 super().__init__，避免真实硬件/后端依赖
|
||||
self.channel_num = channel_num
|
||||
self.support_touch_tip = True
|
||||
self.current_tip = iter(make_tip_iter())
|
||||
self.calls: List[Tuple[str, Any]] = []
|
||||
|
||||
async def pick_up_tips(self, tip_spots, use_channels=None, offsets=None, **backend_kwargs):
|
||||
self.calls.append(("pick_up_tips", {"tips": list(tip_spots), "use_channels": use_channels}))
|
||||
|
||||
async def aspirate(
|
||||
self,
|
||||
resources: Sequence[Any],
|
||||
vols: List[float],
|
||||
use_channels: Optional[List[int]] = None,
|
||||
flow_rates: Optional[List[Optional[float]]] = None,
|
||||
offsets: Any = None,
|
||||
liquid_height: Any = None,
|
||||
blow_out_air_volume: Any = None,
|
||||
spread: str = "wide",
|
||||
**backend_kwargs,
|
||||
):
|
||||
self.calls.append(
|
||||
(
|
||||
"aspirate",
|
||||
{
|
||||
"resources": list(resources),
|
||||
"vols": list(vols),
|
||||
"use_channels": list(use_channels) if use_channels is not None else None,
|
||||
"flow_rates": list(flow_rates) if flow_rates is not None else None,
|
||||
"offsets": list(offsets) if offsets is not None else None,
|
||||
"liquid_height": list(liquid_height) if liquid_height is not None else None,
|
||||
"blow_out_air_volume": list(blow_out_air_volume) if blow_out_air_volume is not None else None,
|
||||
},
|
||||
)
|
||||
)
|
||||
|
||||
async def dispense(
|
||||
self,
|
||||
resources: Sequence[Any],
|
||||
vols: List[float],
|
||||
use_channels: Optional[List[int]] = None,
|
||||
flow_rates: Optional[List[Optional[float]]] = None,
|
||||
offsets: Any = None,
|
||||
liquid_height: Any = None,
|
||||
blow_out_air_volume: Any = None,
|
||||
spread: str = "wide",
|
||||
**backend_kwargs,
|
||||
):
|
||||
self.calls.append(
|
||||
(
|
||||
"dispense",
|
||||
{
|
||||
"resources": list(resources),
|
||||
"vols": list(vols),
|
||||
"use_channels": list(use_channels) if use_channels is not None else None,
|
||||
"flow_rates": list(flow_rates) if flow_rates is not None else None,
|
||||
"offsets": list(offsets) if offsets is not None else None,
|
||||
"liquid_height": list(liquid_height) if liquid_height is not None else None,
|
||||
"blow_out_air_volume": list(blow_out_air_volume) if blow_out_air_volume is not None else None,
|
||||
},
|
||||
)
|
||||
)
|
||||
|
||||
async def discard_tips(self, use_channels=None, *args, **kwargs):
|
||||
# 有的分支是 discard_tips(use_channels=[0])，有的分支是 discard_tips([0..7])（位置参数）
|
||||
self.calls.append(("discard_tips", {"use_channels": list(use_channels) if use_channels is not None else None}))
|
||||
|
||||
async def custom_delay(self, seconds=0, msg=None):
|
||||
self.calls.append(("custom_delay", {"seconds": seconds, "msg": msg}))
|
||||
|
||||
async def touch_tip(self, targets):
|
||||
# 原实现会访问 targets.get_size_x() 等；测试里只记录调用
|
||||
self.calls.append(("touch_tip", {"targets": targets}))
|
||||
|
||||
async def mix(self, targets, mix_time=None, mix_vol=None, height_to_bottom=None, offsets=None, mix_rate=None, none_keys=None):
|
||||
self.calls.append(
|
||||
(
|
||||
"mix",
|
||||
{
|
||||
"targets": targets,
|
||||
"mix_time": mix_time,
|
||||
"mix_vol": mix_vol,
|
||||
},
|
||||
)
|
||||
)
|
||||
|
||||
|
||||
def run(coro):
|
||||
return asyncio.run(coro)
|
||||
|
||||
|
||||
def _ensure_unilabos_extra(well: Well) -> None:
|
||||
if not hasattr(well, "unilabos_extra") or well.unilabos_extra is None:
|
||||
well.unilabos_extra = {} # type: ignore[attr-defined]
|
||||
def test_one_to_one_single_channel_basic_calls():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(64))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(3)]
|
||||
targets = [DummyContainer(f"T{i}") for i in range(3)]
|
||||
|
||||
def _assign_sample_uuid(well: Well, value: str) -> None:
|
||||
_ensure_unilabos_extra(well)
|
||||
well.unilabos_extra["sample_uuid"] = value # type: ignore[attr-defined]
|
||||
|
||||
|
||||
def _zero_coordinate() -> Coordinate:
|
||||
if hasattr(Coordinate, "zero"):
|
||||
return Coordinate.zero()
|
||||
return Coordinate(0, 0, 0)
|
||||
|
||||
|
||||
def _zero_offsets(count: int) -> List[Coordinate]:
|
||||
return [_zero_coordinate() for _ in range(count)]
|
||||
|
||||
|
||||
def _build_simulation_deck() -> tuple[PRCXI9300Deck, TipRack, Plate, Plate, Plate, PRCXI9300Trash]:
|
||||
deck = PRCXI9300Deck(name="PRCXI_Deck", size_x=542, size_y=374, size_z=50)
|
||||
tip_rack = PRCXI_300ul_Tips("Tips")
|
||||
source_plate = PRCXI_BioER_96_wellplate("SourcePlate")
|
||||
target_plate = PRCXI_BioER_96_wellplate("TargetPlate")
|
||||
waste_plate = PRCXI_BioER_96_wellplate("WastePlate")
|
||||
trash = PRCXI9300Trash(name="trash", size_x=100, size_y=100, size_z=50)
|
||||
deck.assign_child_resource(tip_rack, location=Coordinate(0, 0, 0))
|
||||
deck.assign_child_resource(source_plate, location=Coordinate(150, 0, 0))
|
||||
deck.assign_child_resource(target_plate, location=Coordinate(300, 0, 0))
|
||||
deck.assign_child_resource(waste_plate, location=Coordinate(450, 0, 0))
|
||||
deck.assign_child_resource(trash, location=Coordinate(150, -120, 0))
|
||||
return deck, tip_rack, source_plate, target_plate, waste_plate, trash
|
||||
|
||||
|
||||
def _stop_backend(handler: LiquidHandlerAbstract) -> None:
|
||||
try:
|
||||
run(handler.backend.stop())
|
||||
except Exception: # pragma: no cover - 如果 backend 已经停止
|
||||
pass
|
||||
simulate_handler = getattr(handler, "_simulate_handler", None)
|
||||
if simulate_handler is not None and getattr(simulate_handler, "backend", None) is not None:
|
||||
try:
|
||||
run(simulate_handler.backend.stop())
|
||||
except Exception: # pragma: no cover
|
||||
pass
|
||||
|
||||
|
||||
@pytest.fixture(params=[1, 8])
|
||||
def prcxi_simulation(request) -> SimulationContext:
|
||||
if not PYLABROBOT_AVAILABLE:
|
||||
pytest.skip("pylabrobot is required for PRCXI simulation tests.")
|
||||
if os.environ.get(SIM_ENV_VAR) != "1":
|
||||
pytest.skip(f"Set {SIM_ENV_VAR}=1 to run PRCXI simulation tests.")
|
||||
|
||||
channel_num = request.param
|
||||
deck, tip_rack, source_plate, target_plate, waste_plate, _trash = _build_simulation_deck()
|
||||
backend_cfg = {
|
||||
"type": "unilabos.devices.liquid_handling.rviz_backend.UniLiquidHandlerRvizBackend",
|
||||
"channel_num": channel_num,
|
||||
"total_height": 310,
|
||||
"lh_device_id": f"pytest_prcxi_{channel_num}",
|
||||
}
|
||||
handler = LiquidHandlerAbstract(
|
||||
backend=backend_cfg,
|
||||
deck=deck,
|
||||
simulator=True,
|
||||
channel_num=channel_num,
|
||||
total_height=310,
|
||||
)
|
||||
run(handler.setup())
|
||||
handler.set_tiprack([tip_rack])
|
||||
handler.support_touch_tip = False
|
||||
|
||||
context = SimulationContext(
|
||||
handler=handler,
|
||||
deck=deck,
|
||||
tip_rack=tip_rack,
|
||||
source_plate=source_plate,
|
||||
target_plate=target_plate,
|
||||
waste_plate=waste_plate,
|
||||
channel_num=channel_num,
|
||||
)
|
||||
|
||||
yield context
|
||||
|
||||
_stop_backend(handler)
|
||||
|
||||
|
||||
def _pick_wells(plate: Plate, start: int, count: int) -> List[Well]:
|
||||
wells = plate.children[start : start + count]
|
||||
for well in wells:
|
||||
_ensure_unilabos_extra(well)
|
||||
return wells
|
||||
|
||||
|
||||
def _assert_samples_match(sources: Sequence[Well], targets: Sequence[Well]) -> None:
|
||||
for src, tgt in zip(sources, targets):
|
||||
src_uuid = getattr(src, "unilabos_extra", {}).get("sample_uuid")
|
||||
tgt_uuid = getattr(tgt, "unilabos_extra", {}).get("sample_uuid")
|
||||
assert tgt_uuid == src_uuid
|
||||
|
||||
|
||||
def test_transfer_liquid_single_channel_one_to_one(prcxi_simulation: SimulationContext):
|
||||
if prcxi_simulation.channel_num != 1:
|
||||
pytest.skip("仅在单通道配置下运行")
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
for well in prcxi_simulation.source_plate.children + prcxi_simulation.target_plate.children:
|
||||
_ensure_unilabos_extra(well)
|
||||
sources = prcxi_simulation.source_plate[0:3]
|
||||
targets = prcxi_simulation.target_plate["A4:A6"]
|
||||
for idx, src in enumerate(sources):
|
||||
_assign_sample_uuid(src, f"single_{idx}")
|
||||
offsets = _zero_offsets(max(len(sources), len(targets)))
|
||||
|
||||
result = run(
|
||||
handler.transfer_liquid(
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=[5.0, 6.0, 7.0],
|
||||
dis_vols=[10.0, 11.0, 12.0],
|
||||
offsets=offsets,
|
||||
mix_times=None,
|
||||
asp_vols=[1, 2, 3],
|
||||
dis_vols=[4, 5, 6],
|
||||
mix_times=None, # 应该仍能执行（不 mix）
|
||||
)
|
||||
)
|
||||
|
||||
# assert result == """"""
|
||||
assert [c[0] for c in lh.calls].count("pick_up_tips") == 3
|
||||
assert [c[0] for c in lh.calls].count("aspirate") == 3
|
||||
assert [c[0] for c in lh.calls].count("dispense") == 3
|
||||
assert [c[0] for c in lh.calls].count("discard_tips") == 3
|
||||
|
||||
_assert_samples_match(sources, targets)
|
||||
# 每次 aspirate/dispense 都是单孔列表
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
assert aspirates[0]["resources"] == [sources[0]]
|
||||
assert aspirates[0]["vols"] == [1.0]
|
||||
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert dispenses[2]["resources"] == [targets[2]]
|
||||
assert dispenses[2]["vols"] == [6.0]
|
||||
|
||||
|
||||
def test_transfer_liquid_single_channel_one_to_many(prcxi_simulation: SimulationContext):
|
||||
if prcxi_simulation.channel_num != 1:
|
||||
pytest.skip("仅在单通道配置下运行")
|
||||
def test_one_to_one_single_channel_before_stage_mixes_prior_to_aspirate():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(16))
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
for well in prcxi_simulation.source_plate.children + prcxi_simulation.target_plate.children:
|
||||
_ensure_unilabos_extra(well)
|
||||
source = prcxi_simulation.source_plate.children[0]
|
||||
targets = prcxi_simulation.target_plate["A1:E1"]
|
||||
_assign_sample_uuid(source, "one_to_many_source")
|
||||
offsets = _zero_offsets(max(len(targets), 1))
|
||||
source = DummyContainer("S0")
|
||||
target = DummyContainer("T0")
|
||||
|
||||
run(
|
||||
handler.transfer_liquid(
|
||||
lh.transfer_liquid(
|
||||
sources=[source],
|
||||
targets=[target],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=[5],
|
||||
dis_vols=[5],
|
||||
mix_stage="before",
|
||||
mix_times=1,
|
||||
mix_vol=3,
|
||||
)
|
||||
)
|
||||
|
||||
names = [name for name, _ in lh.calls]
|
||||
assert names.count("mix") == 1
|
||||
assert names.index("mix") < names.index("aspirate")
|
||||
|
||||
|
||||
def test_one_to_one_eight_channel_groups_by_8():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(256))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(16)]
|
||||
targets = [DummyContainer(f"T{i}") for i in range(16)]
|
||||
asp_vols = list(range(1, 17))
|
||||
dis_vols = list(range(101, 117))
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=dis_vols,
|
||||
mix_times=0, # 触发逻辑但不 mix
|
||||
)
|
||||
)
|
||||
|
||||
# 16 个任务 -> 2 组，每组 8 通道一起做
|
||||
assert [c[0] for c in lh.calls].count("pick_up_tips") == 2
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert len(aspirates) == 2
|
||||
assert len(dispenses) == 2
|
||||
|
||||
assert aspirates[0]["resources"] == sources[0:8]
|
||||
assert aspirates[0]["vols"] == [float(v) for v in asp_vols[0:8]]
|
||||
assert dispenses[1]["resources"] == targets[8:16]
|
||||
assert dispenses[1]["vols"] == [float(v) for v in dis_vols[8:16]]
|
||||
|
||||
|
||||
def test_one_to_one_eight_channel_requires_multiple_of_8_targets():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(64))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(9)]
|
||||
targets = [DummyContainer(f"T{i}") for i in range(9)]
|
||||
|
||||
with pytest.raises(ValueError, match="multiple of 8"):
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=[1] * 9,
|
||||
dis_vols=[1] * 9,
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
|
||||
def test_one_to_one_eight_channel_parameter_lists_are_chunked_per_8():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(512))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(16)]
|
||||
targets = [DummyContainer(f"T{i}") for i in range(16)]
|
||||
asp_vols = [i + 1 for i in range(16)]
|
||||
dis_vols = [200 + i for i in range(16)]
|
||||
asp_flow_rates = [0.1 * (i + 1) for i in range(16)]
|
||||
dis_flow_rates = [0.2 * (i + 1) for i in range(16)]
|
||||
offsets = [f"offset_{i}" for i in range(16)]
|
||||
liquid_heights = [i * 0.5 for i in range(16)]
|
||||
blow_out_air_volume = [i + 0.05 for i in range(16)]
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=dis_vols,
|
||||
asp_flow_rates=asp_flow_rates,
|
||||
dis_flow_rates=dis_flow_rates,
|
||||
offsets=offsets,
|
||||
liquid_height=liquid_heights,
|
||||
blow_out_air_volume=blow_out_air_volume,
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert len(aspirates) == len(dispenses) == 2
|
||||
|
||||
for batch_idx in range(2):
|
||||
start = batch_idx * 8
|
||||
end = start + 8
|
||||
asp_call = aspirates[batch_idx]
|
||||
dis_call = dispenses[batch_idx]
|
||||
assert asp_call["resources"] == sources[start:end]
|
||||
assert asp_call["flow_rates"] == asp_flow_rates[start:end]
|
||||
assert asp_call["offsets"] == offsets[start:end]
|
||||
assert asp_call["liquid_height"] == liquid_heights[start:end]
|
||||
assert asp_call["blow_out_air_volume"] == blow_out_air_volume[start:end]
|
||||
assert dis_call["flow_rates"] == dis_flow_rates[start:end]
|
||||
assert dis_call["offsets"] == offsets[start:end]
|
||||
assert dis_call["liquid_height"] == liquid_heights[start:end]
|
||||
assert dis_call["blow_out_air_volume"] == blow_out_air_volume[start:end]
|
||||
|
||||
|
||||
def test_one_to_one_eight_channel_handles_32_tasks_four_batches():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(1024))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(32)]
|
||||
targets = [DummyContainer(f"T{i}") for i in range(32)]
|
||||
asp_vols = [i + 1 for i in range(32)]
|
||||
dis_vols = [300 + i for i in range(32)]
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=dis_vols,
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
pick_calls = [name for name, _ in lh.calls if name == "pick_up_tips"]
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert len(pick_calls) == 4
|
||||
assert len(aspirates) == len(dispenses) == 4
|
||||
assert aspirates[0]["resources"] == sources[0:8]
|
||||
assert aspirates[-1]["resources"] == sources[24:32]
|
||||
assert dispenses[0]["resources"] == targets[0:8]
|
||||
assert dispenses[-1]["resources"] == targets[24:32]
|
||||
|
||||
|
||||
def test_one_to_many_single_channel_aspirates_total_when_asp_vol_too_small():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(64))
|
||||
|
||||
source = DummyContainer("SRC")
|
||||
targets = [DummyContainer(f"T{i}") for i in range(3)]
|
||||
dis_vols = [10, 20, 30] # sum=60
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=[source],
|
||||
targets=targets,
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=10.0,
|
||||
dis_vols=[2.0, 2.0, 2.0, 2.0, 2.0],
|
||||
offsets=offsets,
|
||||
asp_vols=10, # 小于 sum(dis_vols) -> 应吸 60
|
||||
dis_vols=dis_vols,
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
for target in targets:
|
||||
assert getattr(target, "unilabos_extra", {}).get("sample_uuid") == "one_to_many_source"
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
assert len(aspirates) == 1
|
||||
assert aspirates[0]["resources"] == [source]
|
||||
assert aspirates[0]["vols"] == [60.0]
|
||||
assert aspirates[0]["use_channels"] == [0]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert [d["vols"][0] for d in dispenses] == [10.0, 20.0, 30.0]
|
||||
|
||||
|
||||
def test_transfer_liquid_single_channel_many_to_one(prcxi_simulation: SimulationContext):
|
||||
if prcxi_simulation.channel_num != 1:
|
||||
pytest.skip("仅在单通道配置下运行")
|
||||
def test_one_to_many_eight_channel_basic():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(128))
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
for well in prcxi_simulation.source_plate.children + prcxi_simulation.target_plate.children:
|
||||
_ensure_unilabos_extra(well)
|
||||
sources = prcxi_simulation.source_plate[0:3]
|
||||
target = prcxi_simulation.target_plate.children[4]
|
||||
for idx, src in enumerate(sources):
|
||||
_assign_sample_uuid(src, f"many_to_one_{idx}")
|
||||
offsets = _zero_offsets(max(len(sources), len([target])))
|
||||
source = DummyContainer("SRC")
|
||||
targets = [DummyContainer(f"T{i}") for i in range(8)]
|
||||
dis_vols = [i + 1 for i in range(8)]
|
||||
|
||||
run(
|
||||
handler.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=[target],
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
use_channels=[0],
|
||||
asp_vols=[8.0, 9.0, 10.0],
|
||||
dis_vols=1,
|
||||
offsets=offsets,
|
||||
mix_stage="after",
|
||||
mix_times=1,
|
||||
mix_vol=5,
|
||||
)
|
||||
)
|
||||
|
||||
assert getattr(target, "unilabos_extra", {}).get("sample_uuid") == "many_to_one_2"
|
||||
|
||||
|
||||
def test_transfer_liquid_eight_channel_batches(prcxi_simulation: SimulationContext):
|
||||
if prcxi_simulation.channel_num != 8:
|
||||
pytest.skip("仅在八通道配置下运行")
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
for well in prcxi_simulation.source_plate.children + prcxi_simulation.target_plate.children:
|
||||
_ensure_unilabos_extra(well)
|
||||
sources = prcxi_simulation.source_plate[0:8]
|
||||
targets = prcxi_simulation.target_plate[16:24]
|
||||
for idx, src in enumerate(sources):
|
||||
_assign_sample_uuid(src, f"batch_{idx}")
|
||||
offsets = _zero_offsets(len(targets))
|
||||
|
||||
use_channels = list(range(8))
|
||||
asp_vols = [float(i + 1) * 2 for i in range(8)]
|
||||
dis_vols = [float(i + 10) for i in range(8)]
|
||||
|
||||
run(
|
||||
handler.transfer_liquid(
|
||||
sources=sources,
|
||||
lh.transfer_liquid(
|
||||
sources=[source],
|
||||
targets=targets,
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
use_channels=use_channels,
|
||||
asp_vols=asp_vols,
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=999, # one-to-many 8ch 会按 dis_vols 吸（每通道各自）
|
||||
dis_vols=dis_vols,
|
||||
offsets=offsets,
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
_assert_samples_match(sources, targets)
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
assert aspirates[0]["resources"] == [source] * 8
|
||||
assert aspirates[0]["vols"] == [float(v) for v in dis_vols]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert dispenses[0]["resources"] == targets
|
||||
assert dispenses[0]["vols"] == [float(v) for v in dis_vols]
|
||||
|
||||
|
||||
@pytest.mark.parametrize("mix_stage", ["before", "after", "both"])
|
||||
def test_transfer_liquid_mix_stages(prcxi_simulation: SimulationContext, mix_stage: str):
|
||||
if prcxi_simulation.channel_num != 1:
|
||||
pytest.skip("仅在单通道配置下运行")
|
||||
def test_many_to_one_single_channel_standard_dispense_equals_asp_by_default():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(128))
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
for well in prcxi_simulation.source_plate.children + prcxi_simulation.target_plate.children:
|
||||
_ensure_unilabos_extra(well)
|
||||
target = prcxi_simulation.target_plate[70]
|
||||
sources = prcxi_simulation.source_plate[80:82]
|
||||
for idx, src in enumerate(sources):
|
||||
_assign_sample_uuid(src, f"mix_stage_{mix_stage}_{idx}")
|
||||
sources = [DummyContainer(f"S{i}") for i in range(3)]
|
||||
target = DummyContainer("T")
|
||||
asp_vols = [5, 6, 7]
|
||||
|
||||
run(
|
||||
handler.transfer_liquid(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=[target],
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=[4.0, 5.0],
|
||||
dis_vols=1,
|
||||
offsets=_zero_offsets(len(sources)),
|
||||
mix_stage=mix_stage,
|
||||
mix_times=2,
|
||||
mix_vol=3,
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=1, # many-to-one 允许标量；非比例模式下实际每次分液=对应 asp_vol
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
# mix_stage 前后都应该保留最新源的 sample_uuid
|
||||
assert getattr(target, "unilabos_extra", {}).get("sample_uuid") == f"mix_stage_{mix_stage}_1"
|
||||
if prcxi_simulation.channel_num != 8:
|
||||
pytest.skip("仅在八通道配置下运行")
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert [d["vols"][0] for d in dispenses] == [float(v) for v in asp_vols]
|
||||
assert all(d["resources"] == [target] for d in dispenses)
|
||||
|
||||
handler = prcxi_simulation.handler
|
||||
sources = prcxi_simulation.source_plate[0:8]
|
||||
targets = prcxi_simulation.target_plate[16:24]
|
||||
for idx, src in enumerate(sources):
|
||||
_assign_sample_uuid(src, f"batch_{idx}")
|
||||
offsets = _zero_offsets(len(targets))
|
||||
|
||||
use_channels = list(range(8))
|
||||
asp_vols = [float(i + 1) * 2 for i in range(8)]
|
||||
dis_vols = [float(i + 10) for i in range(8)]
|
||||
def test_many_to_one_single_channel_before_stage_mixes_target_once():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(128))
|
||||
|
||||
sources = [DummyContainer("S0"), DummyContainer("S1")]
|
||||
target = DummyContainer("T")
|
||||
|
||||
run(
|
||||
handler.transfer_liquid(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[prcxi_simulation.tip_rack],
|
||||
use_channels=use_channels,
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=dis_vols,
|
||||
offsets=offsets,
|
||||
mix_stage="after",
|
||||
targets=[target],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=[5, 6],
|
||||
dis_vols=1,
|
||||
mix_stage="before",
|
||||
mix_times=2,
|
||||
mix_vol=3,
|
||||
mix_vol=4,
|
||||
)
|
||||
)
|
||||
|
||||
_assert_samples_match(sources, targets)
|
||||
names = [name for name, _ in lh.calls]
|
||||
assert names[0] == "mix"
|
||||
assert names.count("mix") == 1
|
||||
|
||||
|
||||
def test_many_to_one_single_channel_proportional_mixing_uses_dis_vols_per_source():
|
||||
lh = FakeLiquidHandler(channel_num=1)
|
||||
lh.current_tip = iter(make_tip_iter(128))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(3)]
|
||||
target = DummyContainer("T")
|
||||
asp_vols = [5, 6, 7]
|
||||
dis_vols = [1, 2, 3]
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=[target],
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=dis_vols, # 比例模式
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert [d["vols"][0] for d in dispenses] == [float(v) for v in dis_vols]
|
||||
|
||||
|
||||
def test_many_to_one_eight_channel_basic():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(256))
|
||||
|
||||
sources = [DummyContainer(f"S{i}") for i in range(8)]
|
||||
target = DummyContainer("T")
|
||||
asp_vols = [10 + i for i in range(8)]
|
||||
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=[target],
|
||||
tip_racks=[],
|
||||
use_channels=list(range(8)),
|
||||
asp_vols=asp_vols,
|
||||
dis_vols=999, # 非比例模式下每通道分液=对应 asp_vol
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
aspirates = [payload for name, payload in lh.calls if name == "aspirate"]
|
||||
dispenses = [payload for name, payload in lh.calls if name == "dispense"]
|
||||
assert aspirates[0]["resources"] == sources
|
||||
assert aspirates[0]["vols"] == [float(v) for v in asp_vols]
|
||||
assert dispenses[0]["resources"] == [target] * 8
|
||||
assert dispenses[0]["vols"] == [float(v) for v in asp_vols]
|
||||
|
||||
|
||||
def test_transfer_liquid_mode_detection_unsupported_shape_raises():
|
||||
lh = FakeLiquidHandler(channel_num=8)
|
||||
lh.current_tip = iter(make_tip_iter(64))
|
||||
|
||||
sources = [DummyContainer("S0"), DummyContainer("S1")]
|
||||
targets = [DummyContainer("T0"), DummyContainer("T1"), DummyContainer("T2")]
|
||||
|
||||
with pytest.raises(ValueError, match="Unsupported transfer mode"):
|
||||
run(
|
||||
lh.transfer_liquid(
|
||||
sources=sources,
|
||||
targets=targets,
|
||||
tip_racks=[],
|
||||
use_channels=[0],
|
||||
asp_vols=[1, 1],
|
||||
dis_vols=[1, 1, 1],
|
||||
mix_times=0,
|
||||
)
|
||||
)
|
||||
|
||||
|
||||
Reference in New Issue
Block a user